3GZT

VP7 recoated rotavirus DLP

PDB DOI: https://doi.org/10.2210/pdb3GZT/pdb
EM Map EMD-1571: EMDB EMDataResource

Classification: VIRUS
Organism(s): Simian rotavirus A strain RRV
Mutation(s): Yes

Deposited: 2009-04-07 Released: 2009-07-14
Deposition Author(s): Chen, J.Z., Settembre, E.C., Harrison, S.C., Grigorieff, N.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 2.0 of the entry. See complete history.

Macromolecule Content

Total Structure Weight: 380.35 kDa
Atom Count: 26,537
Modelled Residue Count: 3,315
Deposited Residue Count: 3,315
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Outer capsid glycoprotein VP7	A [auth B] B [auth F] C [auth G] D [auth H] E [auth I] A [auth B], B [auth F], C [auth G], D [auth H], E [auth I], F [auth J], G [auth K], H [auth L], I [auth M], J [auth N], K [auth O], L [auth P], M [auth Q]	255	Simian rotavirus A strain RRV	Mutation(s): 1
UniProt
Find proteins for P12476 (Rotavirus A (strain RVA/Monkey/United States/RRV/1975/G3P5B[3])) Explore P12476 Go to UniProtKB: P12476
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P12476
Sequence Annotations Expand
Reference Sequence

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	N [auth A], O [auth C], P [auth D], Q [auth E], R, N [auth A], O [auth C], P [auth D], Q [auth E], R, S, T, U, V, W, X, Y, Z	2		N/A	Interactions Focus chain N [auth A] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R Focus chain S Focus chain T Focus chain U Focus chain V Focus chain W Focus chain X Focus chain Y Focus chain Z Interactions & Density Focus chain N [auth A] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R Focus chain S Focus chain T Focus chain U Focus chain V Focus chain W Focus chain X Focus chain Y Focus chain Z
Glycosylation Resources
GlyTouCan: G42666HT GlyCosmos: G42666HT GlyGen: G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain AA [auth B] SDF format, chain AB [auth Q] SDF format, chain DA [auth B] SDF format, chain DB [auth X] SDF format, chain FA [auth F] SDF format, chain GA [auth G] SDF format, chain IA [auth H] SDF format, chain KA [auth I] SDF format, chain LA [auth I] SDF format, chain MA [auth J] SDF format, chain NA [auth J] SDF format, chain RA [auth L] SDF format, chain SA [auth M] SDF format, chain VA [auth N] SDF format, chain WA [auth O] SDF format, chain YA [auth P] SDF format, chain BA [auth B] SDF format, chain BB [auth Q] SDF format, chain CA [auth B] SDF format, chain CB [auth Q] SDF format, chain EA [auth F] SDF format, chain HA [auth G] SDF format, chain JA [auth H] SDF format, chain OA [auth K] SDF format, chain PA [auth K] SDF format, chain QA [auth L] SDF format, chain TA [auth M] SDF format, chain UA [auth N] SDF format, chain XA [auth O] SDF format, chain ZA [auth P] MOL2 format, chain AA [auth B] MOL2 format, chain AB [auth Q] MOL2 format, chain DA [auth B] MOL2 format, chain DB [auth X] MOL2 format, chain FA [auth F] MOL2 format, chain GA [auth G] MOL2 format, chain IA [auth H] MOL2 format, chain KA [auth I] MOL2 format, chain LA [auth I] MOL2 format, chain MA [auth J] MOL2 format, chain NA [auth J] MOL2 format, chain RA [auth L] MOL2 format, chain SA [auth M] MOL2 format, chain VA [auth N] MOL2 format, chain WA [auth O] MOL2 format, chain YA [auth P] MOL2 format, chain BA [auth B] MOL2 format, chain BB [auth Q] MOL2 format, chain CA [auth B] MOL2 format, chain CB [auth Q] MOL2 format, chain EA [auth F] MOL2 format, chain HA [auth G] MOL2 format, chain JA [auth H] MOL2 format, chain OA [auth K] MOL2 format, chain PA [auth K] MOL2 format, chain QA [auth L] MOL2 format, chain TA [auth M] MOL2 format, chain UA [auth N] MOL2 format, chain XA [auth O] MOL2 format, chain ZA [auth P]	AA [auth B] AB [auth Q] BA [auth B] BB [auth Q] CA [auth B] AA [auth B], AB [auth Q], BA [auth B], BB [auth Q], CA [auth B], CB [auth Q], DA [auth B], DB [auth X], EA [auth F], FA [auth F], GA [auth G], HA [auth G], IA [auth H], JA [auth H], KA [auth I], LA [auth I], MA [auth J], NA [auth J], OA [auth K], PA [auth K], QA [auth L], RA [auth L], SA [auth M], TA [auth M], UA [auth N], VA [auth N], WA [auth O], XA [auth O], YA [auth P], ZA [auth P]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain AA [auth B] Focus chain AB [auth Q] Focus chain BA [auth B] Focus chain BB [auth Q] Focus chain CA [auth B] Focus chain CB [auth Q] Focus chain DA [auth B] Focus chain DB [auth X] Focus chain EA [auth F] Focus chain FA [auth F] Focus chain GA [auth G] Focus chain HA [auth G] Focus chain IA [auth H] Focus chain JA [auth H] Focus chain KA [auth I] Focus chain LA [auth I] Focus chain MA [auth J] Focus chain NA [auth J] Focus chain OA [auth K] Focus chain PA [auth K] Focus chain QA [auth L] Focus chain RA [auth L] Focus chain SA [auth M] Focus chain TA [auth M] Focus chain UA [auth N] Focus chain VA [auth N] Focus chain WA [auth O] Focus chain XA [auth O] Focus chain YA [auth P] Focus chain ZA [auth P] Interactions & Density Focus chain AA [auth B] Focus chain AB [auth Q] Focus chain BA [auth B] Focus chain BB [auth Q] Focus chain CA [auth B] Focus chain CB [auth Q] Focus chain DA [auth B] Focus chain DB [auth X] Focus chain EA [auth F] Focus chain FA [auth F] Focus chain GA [auth G] Focus chain HA [auth G] Focus chain IA [auth H] Focus chain JA [auth H] Focus chain KA [auth I] Focus chain LA [auth I] Focus chain MA [auth J] Focus chain NA [auth J] Focus chain OA [auth K] Focus chain PA [auth K] Focus chain QA [auth L] Focus chain RA [auth L] Focus chain SA [auth M] Focus chain TA [auth M] Focus chain UA [auth N] Focus chain VA [auth N] Focus chain WA [auth O] Focus chain XA [auth O] Focus chain YA [auth P] Focus chain ZA [auth P]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.80 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2009-07-14

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2009-07-14
Type: Initial release
Version 1.1: 2011-07-13
Changes: Non-polymer description, Version format compliance
Version 2.0: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary